Add rclone copy#12337
Open
antoniasaracco wants to merge 14 commits into
Open
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
I added a new module for the RCLONE suite: rclone copy.
This module uses rclone copy to transfer files from the source path to the destination path, while allowing extra arguments to be passed through task.ext.args. This makes it possible to configure options such as logging, stats, certificate handling, chunk size, HTTP URL support and dry-run behavior from the pipeline config.
Notes:
For the nf-test, I am using the same input and output location together with --dry-run. The module would not have write permissions to perform the actual copy in the test environment, so running it this way allows us to mock how the command would be executed without requiring remote write access.
This is related to nf-core/datasync#45